Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168359.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_58, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 144159
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:118062 original size:20 final size:19
Alignment explanation
Indices: 118011--118074 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
118001 AAATATTAGT
*
118011 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
118029 TA-TATGAATAAATTATGCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
118050 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
118070 TATTA
1 TATTA
118075 GTTATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:118385 original size:22 final size:22
Alignment explanation
Indices: 118360--118408 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
118350 AAGTTTATCC
118360 ATAATAAAATAACTAT-TTTATT
1 ATAATAAAATAA-TATATTTATT
**
118382 ATAATATTATAATATATTTATT
1 ATAATAAAATAATATATTTATT
118404 ATAAT
1 ATAAT
118409 GTACTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATAAAATAATATATTTATT
Found at i:118416 original size:22 final size:23
Alignment explanation
Indices: 118367--118426 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 23
118357 TCCATAATAA
*
118367 AATAACTATTTTATTATAATATTAT
1 AATAA-TA-TTTATTATAATAGTAT
118392 AAT-ATATTTATTATAAT-GTACT
1 AATAATATTTATTATAATAGTA-T
118414 AATAAATATTTAT
1 AAT-AATATTTAT
118427 ACTTATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 2 0.06
24 9 0.29
25 3 0.10
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAATATTTATTATAATAGTAT
Found at i:118951 original size:24 final size:24
Alignment explanation
Indices: 118924--118969 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
118914 CTTTATTTTG
118924 TTTATCT-AAATCTAATCAAATTAT
1 TTTATCTCAAAT-TAATCAAATTAT
* *
118948 TTTATTTCAAATTAATTAAATT
1 TTTATCTCAAATTAATCAAATT
118970 TAAAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTATCTCAAATTAATCAAATTAT
Found at i:119527 original size:45 final size:47
Alignment explanation
Indices: 119478--119566 Score: 123
Period size: 45 Copynumber: 1.9 Consensus size: 47
119468 ATTTATATTA
*
119478 TAAATTTAACT-GATTATAA-TTA-AATTAA-ATAATAATATATAAAAG
1 TAAATTTAAATAGA-TATAATTTATAATTAATATAAT-ATATATAAAAG
119523 TAAATTTAAATAGATATAATTTATAATTAATATAATATATATAA
1 TAAATTTAAATAGATATAATTTATAATTAATATAATATATATAA
119567 TATCACAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
45 15 0.38
46 5 0.13
47 14 0.36
48 5 0.13
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (47 bp):
TAAATTTAAATAGATATAATTTATAATTAATATAATATATATAAAAG
Found at i:119567 original size:14 final size:14
Alignment explanation
Indices: 119509--119607 Score: 58
Period size: 14 Copynumber: 6.8 Consensus size: 14
119499 AAATTAAATA
*
119509 ATAATATATAAAAGT
1 ATAATATATATAA-T
* *
119524 A-AATTTAAATAGAT
1 ATAATATATATA-AT
*
119538 ATAATTTATAATTAAT
1 ATAATATAT-A-TAAT
119554 ATAATATATATAAT
1 ATAATATATATAAT
* *
119568 ATCACA-ATACTAAT
1 ATAATATATA-TAAT
* *
119582 ATAACAATTTATAAT
1 ATAA-TATATATAAT
119597 ATAATATATAT
1 ATAATATATAT
119608 TTATTTATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
13 3 0.05
14 29 0.45
15 18 0.28
16 13 0.20
17 2 0.03
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (14 bp):
ATAATATATATAAT
Found at i:119711 original size:19 final size:20
Alignment explanation
Indices: 119680--119719 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
119670 ATTTTATAAC
119680 TAAGTTAAATAATATAATTA
1 TAAGTTAAATAATATAATTA
119700 TAAGTT-AATAATATAATTA
1 TAAGTTAAATAATATAATTA
119719 T
1 T
119720 TATTTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TAAGTTAAATAATATAATTA
Found at i:119726 original size:19 final size:19
Alignment explanation
Indices: 119687--119789 Score: 63
Period size: 19 Copynumber: 5.4 Consensus size: 19
119677 AACTAAGTTA
* *
119687 AATAATATAATTATAAGTT
1 AATAATATAATTATTATTT
119706 AATAATATAATTATTATTT
1 AATAATATAATTATTATTT
*
119725 AA-AAGT-TATTTATTTATTT
1 AATAA-TATAATTA-TTATTT
* *
119744 -ATACATATAGTTA--ATTA
1 AATA-ATATAATTATTATTT
*
119761 AATTATATTTAATTATTATTT
1 AA-TA-ATATAATTATTATTT
*
119782 AATTATAT
1 AATAATAT
119790 TAAAATATTA
Statistics
Matches: 64, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
17 3 0.05
18 9 0.14
19 40 0.62
20 7 0.11
21 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (19 bp):
AATAATATAATTATTATTT
Found at i:119776 original size:10 final size:10
Alignment explanation
Indices: 119761--119790 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
119751 TAGTTAATTA
119761 AATTATATTT
1 AATTATATTT
119771 AATTATTATTT
1 AATTA-TATTT
119782 AATTATATT
1 AATTATATT
119791 AAAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTATATTT
Found at i:119785 original size:21 final size:21
Alignment explanation
Indices: 119761--119800 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
119751 TAGTTAATTA
* *
119761 AATTATATTTAATTATTATTT
1 AATTATATTAAAATATTATTT
119782 AATTATATTAAAATATTAT
1 AATTATATTAAAATATTAT
119801 ATAACAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTATATTAAAATATTATTT
Found at i:121214 original size:12 final size:13
Alignment explanation
Indices: 121186--121218 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
121176 GCTTATTATT
121186 TTATTATAGCTTA
1 TTATTATAGCTTA
*
121199 TTATTATATC-TA
1 TTATTATAGCTTA
121211 TTATTATA
1 TTATTATA
121219 ACATTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (13 bp):
TTATTATAGCTTA
Found at i:121772 original size:17 final size:17
Alignment explanation
Indices: 121746--121781 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
121736 AATAGTAATT
* *
121746 ATTAATATTTATCATAA
1 ATTAAAATTTATAATAA
121763 ATTAAAATTTATAATAA
1 ATTAAAATTTATAATAA
121780 AT
1 AT
121782 AATTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAAATTTATAATAA
Found at i:121935 original size:20 final size:19
Alignment explanation
Indices: 121912--121966 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
121902 TAATATTATT
*
121912 ATAATTATTATAATATTTGG
1 ATAATTATTATAATAATT-G
121932 ATAATTTATTCAT-ATAATTG
1 ATAA-TTATT-ATAATAATTG
121952 ATAATTATTA-AATAA
1 ATAATTATTATAATAA
121967 CTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 9 0.29
21 10 0.32
22 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAATTATTATAATAATTG
Found at i:122052 original size:17 final size:18
Alignment explanation
Indices: 122026--122067 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
122016 TAATTAATTA
*
122026 TTATAA-ATATTATATAT
1 TTATAATATATAATATAT
*
122043 TT-TAATATATAATTTAT
1 TTATAATATATAATATAT
122060 TTATAATA
1 TTATAATA
122068 ACCTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 13 0.62
18 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATAATATATAATATAT
Found at i:122120 original size:19 final size:19
Alignment explanation
Indices: 121995--122128 Score: 67
Period size: 19 Copynumber: 7.4 Consensus size: 19
121985 ATTAGCTTAT
*
121995 AATAATTAATATTTAATTA
1 AATAATTATTATTTAATTA
122014 AATAATTAATTA-TT-A-TA
1 AATAATT-ATTATTTAATTA
122031 AAT-ATTATATATTTTAA-TA
1 AATAATTAT-TA-TTTAATTA
* *
122050 TATAA-T-TTATTTATAATA
1 AATAATTATTATTTA-ATTA
* * *
122068 ACCTAATTATTAGTAAATT-
1 A-ATAATTATTATTTAATTA
*
122087 --TAA-TATAATTT-ATTA
1 AATAATTATTATTTAATTA
122102 AATAATTATTATTTAATTA
1 AATAATTATTATTTAATTA
122121 TAATAATT
1 -AATAATT
122129 TAAGAATATA
Statistics
Matches: 87, Mismatches: 11, Indels: 33
0.66 0.08 0.25
Matches are distributed among these distances:
14 3 0.03
15 7 0.08
16 12 0.14
17 11 0.13
18 13 0.15
19 22 0.25
20 14 0.16
21 5 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
AATAATTATTATTTAATTA
Found at i:123127 original size:59 final size:58
Alignment explanation
Indices: 122922--123316 Score: 492
Period size: 59 Copynumber: 6.7 Consensus size: 58
122912 TTTTGTGCAG
* **
122922 GGAAAATTGATACTTTCAACTTTTCC-CAAAATATTTTTGTTTTTGAAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-A-TATT-TTTTTGAAAA-TTTAATTTTAA
* ***
122983 GGGAAATTGATACTTTCAACTTTTCCTC-AAAA-ATCCCTTTGAAAATTT-ATCTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAAT-TTTAA
*
123039 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTAATTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA-TTTAATTTTAA
* * * *
123098 GGAAAATTGACACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTAATTTTAA
* * * *
123157 GGAAAATTGATACTTTCAACTTTTTCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTAATTTTAA
* ** *
123216 GGAAAATTGATACTTTCAATTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTTAA
*
123274 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTT
123317 TTATTTTATT
Statistics
Matches: 298, Mismatches: 28, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
55 2 0.01
56 33 0.11
57 12 0.04
58 65 0.22
59 143 0.48
60 14 0.05
61 28 0.09
62 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTAATTTTAA
Found at i:123305 original size:117 final size:116
Alignment explanation
Indices: 122922--123316 Score: 546
Period size: 118 Copynumber: 3.4 Consensus size: 116
122912 TTTTGTGCAG
* * *
122922 GGAAAATTGATACTTTCAACTTTT-CCCAAAATATTTTTGTTTTTGAAAACTTTAATTTCGAGGG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAA-A-TATT-TTTTTGAAAACTTTAATTTCAAGGA
* *
122986 AAATTGATACTTTCAACTTTTCCTCAAAAATCC--CTTTGAAAATTTATCTTTAA
63 AAATTGATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTGAAAATTTATTTTTAA
* *
123039 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTTAATTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAATTTCAAGGAAAA
*
123104 TTGACACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAA
66 TTGATACTTTCAACTTTTCCTC--AAAAACCTTTTTTGAAAATTTATTTTTAA
* * * * * *
123157 GGAAAATTGATACTTTCAACTTTTTCTCAAAAAAACCTTTTTTGAAAA-TTTATTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAACTTTAATTTCAAGGAAA
*
123221 ATTGATACTTTCAATTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTAA
65 ATTGATACTTTCAACTTTTCCTCAAAAACC-TTTTTTGAAAATTTATTTTTAA
123274 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTT
123317 TTATTTTATT
Statistics
Matches: 251, Mismatches: 19, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
115 46 0.18
116 12 0.05
117 90 0.36
118 92 0.37
119 11 0.04
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (116 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAATTTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAA
Found at i:123340 original size:5 final size:5
Alignment explanation
Indices: 123332--123432 Score: 62
Period size: 5 Copynumber: 19.6 Consensus size: 5
123322 TTATTTAAAG
* * **
123332 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAAA AAAAT AAAGG
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
* * * * *
123382 AAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAAG AATAT TAAAT
1 AAAAT AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT
123430 AAA
1 AAA
123433 CCTAATCTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
3 3 0.04
5 50 0.68
6 16 0.22
7 4 0.05
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:123380 original size:21 final size:20
Alignment explanation
Indices: 123342--123400 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
123332 AAAATAAAAT
*
123342 AATAAAACAAAATAAAAGTGAA
1 AATAAAAAAAAAT-AAAG-GAA
123364 AATAAAAAAAAATAAAGGAA
1 AATAAAAAAAAATAAAGGAA
*
123384 AGTAAAACAAAAATAAA
1 AATAAAA-AAAAATAAA
123401 AATAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 9 0.26
21 13 0.38
22 12 0.35
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.12
Consensus pattern (20 bp):
AATAAAAAAAAATAAAGGAA
Found at i:124364 original size:21 final size:24
Alignment explanation
Indices: 124319--124367 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
124309 AAAATAAAAA
124319 AAATCAGATGAAAATAAATCAGAT
1 AAATCAGATGAAAATAAATCAGAT
*
124343 AAATCA-A-GAAAATTAA-CAGAT
1 AAATCAGATGAAAATAAATCAGAT
124364 AAAT
1 AAAT
124368 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 1 0.04
24 6 0.25
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.20
Consensus pattern (24 bp):
AAATCAGATGAAAATAAATCAGAT
Found at i:124435 original size:9 final size:9
Alignment explanation
Indices: 124421--124449 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
124411 ATTAACAGGA
124421 AAAGAAAAG
1 AAAGAAAAG
124430 AAAGAAAAG
1 AAAGAAAAG
124439 AAA-AAAAG
1 AAAGAAAAG
124447 AAA
1 AAA
124450 AAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:124451 original size:14 final size:14
Alignment explanation
Indices: 124419--124450 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
124409 ATATTAACAG
124419 GAAAAGAAAAGAAA
1 GAAAAGAAAAGAAA
124433 GAAAAGAAAA-AAA
1 GAAAAGAAAAGAAA
124446 GAAAA
1 GAAAA
124451 AATAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
GAAAAGAAAAGAAA
Found at i:124510 original size:6 final size:6
Alignment explanation
Indices: 124499--124597 Score: 55
Period size: 6 Copynumber: 16.8 Consensus size: 6
124489 AATACCTAAG
* * * * *
124499 ATAAAA AT-AAA ATAAAT ATATAT ATATAAA ATAATA ATAATAAA ATTAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA-AAA ATAAAA AT-A-AAA ATAAAA
* * * *
124549 ATTAAA ATTAAA AT-AAA AT-AAA ATTAAA AT-AAA ATTAAA AT-AAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
124593 ATAAA
1 ATAAA
124598 GAGAAAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
5 25 0.32
6 45 0.57
7 5 0.06
8 4 0.05
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
ATAAAA
Found at i:124512 original size:5 final size:5
Alignment explanation
Indices: 124502--124597 Score: 88
Period size: 5 Copynumber: 17.6 Consensus size: 5
124492 ACCTAAGATA
124502 AAAAT AAAAT AAATAT ATATATAT AAAAT --AAT AATAAT AAAATT AAAATT
1 AAAAT AAAAT AAA-AT A-A-A-AT AAAAT AAAAT AA-AAT AAAA-T AAAA-T
124552 AAAATT AAAAT AAAAT AAAATT AAAAT AAAATT AAAAT AAAAT AAA
1 AAAA-T AAAAT AAAAT AAAA-T AAAAT AAAA-T AAAAT AAAAT AAA
124598 GAGAAAAAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 18
0.82 0.00 0.18
Matches are distributed among these distances:
3 3 0.04
5 36 0.44
6 36 0.44
7 2 0.02
8 5 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (5 bp):
AAAAT
Found at i:124542 original size:39 final size:37
Alignment explanation
Indices: 124499--124594 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 37
124489 AATACCTAAG
* *
124499 ATAAAAATAAAATAAATATATATATATAAAATAATAA-T-A
1 ATAAAATTAAAATAAA-AT-TA-AAATAAAATAA-AATTAA
124538 ATAAAATTAAAATTAAAATTAAAATAAAATAAAATTAAA
1 ATAAAATTAAAA-TAAAATTAAAATAAAATAAAATT-AA
124577 ATAAAATTAAAATAAAAT
1 ATAAAATTAAAATAAAAT
124595 AAAGAGAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
36 2 0.04
37 11 0.22
38 8 0.16
39 26 0.51
40 4 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (37 bp):
ATAAAATTAAAATAAAATTAAAATAAAATAAAATTAA
Found at i:124567 original size:11 final size:11
Alignment explanation
Indices: 124502--124594 Score: 91
Period size: 11 Copynumber: 7.9 Consensus size: 11
124492 ACCTAAGATA
124502 AAAATAAAA-T
1 AAAATAAAATT
*
124512 AAATATATATATAT
1 AAA-ATA-AAAT-T
124526 AAAATAATAATAAT
1 AAAATAA-AAT--T
124540 AAAATTAAAATT
1 AAAA-TAAAATT
124552 AAAATTAAAA-T
1 AAAA-TAAAATT
124563 AAAATAAAATT
1 AAAATAAAATT
124574 AAAATAAAATT
1 AAAATAAAATT
124585 AAAATAAAAT
1 AAAATAAAAT
124595 AAAGAGAAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
10 8 0.11
11 30 0.41
12 14 0.19
13 5 0.07
14 13 0.18
15 3 0.04
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:124604 original size:16 final size:16
Alignment explanation
Indices: 124502--124597 Score: 95
Period size: 16 Copynumber: 5.5 Consensus size: 16
124492 ACCTAAGATA
124502 AAAATAAAATAAATATAT
1 AAAATAAAATAAA-AT-T
*
124520 ATATATAAAATAATAATAAT
1 A-AAATAAAATAA-AAT--T
124540 AAAATTAAAATTAAAATT
1 AAAA-TAAAA-TAAAATT
124558 AAAATAAAATAAAATT
1 AAAATAAAATAAAATT
124574 AAAATAAAATTAAAA-T
1 AAAATAAAA-TAAAATT
124590 AAAATAAA
1 AAAATAAA
124598 GAGAAAAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 14
0.81 0.02 0.16
Matches are distributed among these distances:
16 25 0.36
17 10 0.14
18 6 0.09
19 14 0.20
20 12 0.17
21 3 0.04
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAAAATAAAATT
Found at i:124944 original size:84 final size:83
Alignment explanation
Indices: 124802--125044 Score: 287
Period size: 84 Copynumber: 2.9 Consensus size: 83
124792 TTTGATCAAA
*
124802 GCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACATAAATGGCTCCTCT-AATAGAGGC-CCA
1 GCTCCTCTAAACAGAGGCTCAATGACTTTG-GAAAAATAAAT-GCTCCTCTAAATAGAGGCACC-
124865 ACGACTTTGAAAAAATAAATG
63 ACGACTTTGAAAAAATAAATG
** ** *
124886 GCTCCTCTAATTAGAGGCTCAACAACTTTGGAAAAATAAACTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAA-TGCTCCTCTAAATAGAGGCACCAC
* * *
124951 GACTTTTG-GAAAGTAAATT
65 GAC-TTTGAAAAAATAAATG
* * * *
124970 GCTCCTCTAAACAGAGGCACCATGACTTTGG-AAAGTAAATTGCTCCTCTAAATAGAAGCACCAC
1 GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAA-TGCTCCTCTAAATAGAGGCACCAC
125034 GACTTTGAAAA
65 GACTTTGAAAA
125045 GTAAATTGCT
Statistics
Matches: 134, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
82 4 0.03
83 51 0.38
84 73 0.54
85 6 0.04
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCTCAATGACTTTGGAAAAATAAATGCTCCTCTAAATAGAGGCACCACG
ACTTTGAAAAAATAAATG
Found at i:125046 original size:41 final size:41
Alignment explanation
Indices: 124802--125055 Score: 260
Period size: 42 Copynumber: 6.1 Consensus size: 41
124792 TTTGATCAAA
* * * *
124802 GCTCCTCTAAACAGAGGCTCAATGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-ATAAATT
* *
124845 GCTCCTCT-AATAGAGGC-CCAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAAACAGAGGCACC-ACGACTTTG-AAAAATAAATT
** * * * *
124886 GCTCCTCTAATTAGAGGCTCAACAACTTTGGAAAAATAAACT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
* *
124928 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATT
* * *
124970 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* * *
125011 GCTCCTCTAAATAGAAGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
125052 GCTC
1 GCTC
125056 TTTGACAATC
Statistics
Matches: 184, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
41 72 0.39
42 98 0.53
43 14 0.08
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
Found at i:126086 original size:7 final size:8
Alignment explanation
Indices: 126083--126127 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
126073 TTTTTTTCTT
*
126083 TTTTTTCT
1 TTTTTTCA
126091 TTTTTTCA
1 TTTTTTCA
126099 TTTTTTCA
1 TTTTTTCA
126107 -TTTTTCA
1 TTTTTTCA
*
126114 TTTTTTTA
1 TTTTTTCA
126122 TTTTTT
1 TTTTTT
126128 TTTTCAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 7 0.21
8 27 0.79
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTCA
Found at i:126086 original size:8 final size:8
Alignment explanation
Indices: 126073--126128 Score: 60
Period size: 8 Copynumber: 6.9 Consensus size: 8
126063 TTCGTTCACT
126073 TTTTTTTC
1 TTTTTTTC
126081 TTTTTTTTC
1 -TTTTTTTC
126090 TTTTTTTC
1 TTTTTTTC
*
126098 ATTTTTTC
1 TTTTTTTC
*
126106 -ATTTTTC
1 TTTTTTTC
*
126113 ATTTTTTTA
1 -TTTTTTTC
126122 TTTTTTT
1 TTTTTTT
126129 TTTCAAGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
7 6 0.15
8 22 0.54
9 13 0.32
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:130505 original size:15 final size:16
Alignment explanation
Indices: 130469--130506 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
130459 ATTATTTTGT
*
130469 CCTTCTCCTTCTTTAG
1 CCTTCTCCTTCTCTAG
*
130485 CTTTCTCCTT-TCTAG
1 CCTTCTCCTTCTCTAG
130500 CCTTCTC
1 CCTTCTC
130507 TAACATTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.05, C:0.39, G:0.05, T:0.50
Consensus pattern (16 bp):
CCTTCTCCTTCTCTAG
Found at i:134038 original size:59 final size:58
Alignment explanation
Indices: 133962--134354 Score: 578
Period size: 58 Copynumber: 6.7 Consensus size: 58
133952 TTTTGTGTAG
** *
133962 GGAAAATTGATACTTTCAACTTTTCC-CAAAATA-TTTTTTTGTGGAAAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-ACTTTTTTT-T-GAAAATTTATTTTTAA
* *** *
134021 GGAAAATTGATAATTTCAACTTTTCCTCAAAAA--TCCCTTTGAAAATTTATCTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAA
134077 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC--AAAAACTTTTTTTTGAAAATTTATTTTTAA
* *
134137 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAAATTTATTTTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTA-TTTTTAA
134196 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAA
134254 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAA
* * *
134312 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTT
134355 TATTTTATTT
Statistics
Matches: 307, Mismatches: 20, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
56 39 0.13
57 1 0.00
58 125 0.41
59 90 0.29
60 52 0.17
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAA
Found at i:134288 original size:175 final size:172
Alignment explanation
Indices: 133962--134353 Score: 572
Period size: 175 Copynumber: 2.2 Consensus size: 172
133952 TTTTGTGTAG
* *
133962 GGAAAATTGATACTTTCAACTTTTCCCAAAATATTTTTTTGTGGAAAGCTTATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAA-AATTTTTT-TGGAAAACTTATTTTCAAGGAAAA
134027 TTGATAATTTCAACTTTTCCTCAAAAATCCCTTTGAAAATTTATCTTTAAGGAAAATTGATACTT
64 TTGATAATTTCAACTTTTCCTCAAAAATCCCTTTGAAAATTTATCTTTAAGGAAAATTGATACTT
134092 TCAACTTTTCCTCAAAAAAACTTTTTTTTGAAAATTTATTTTTAA
129 TCAACTTTTCCTC-AAAAAACTTTTTTTTGAAAATTTATTTTTAA
* * **
134137 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTT-GAAAATTTATTTTTTTAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA-ATTTTTTTGGAAAACTTA-TTTTCAAGGAAA
* *** *
134201 ATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAAGGAAAATTGATA
63 ATTGATAATTTCAACTTTTCCTCAAAAA--TCCCTTTGAAAATTTATCTTTAAGGAAAATTGATA
134266 CTTTCAACTTTTCCTC-AAAAACTTTTTTTTGAAAATTTATTTTTAA
126 CTTTCAACTTTTCCTCAAAAAACTTTTTTTTGAAAATTTATTTTTAA
*
134312 AGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAA-ATTTTTTT
134354 TTATTTTATT
Statistics
Matches: 198, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
174 7 0.04
175 131 0.66
176 13 0.07
177 47 0.24
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (172 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATTTTTTTGGAAAACTTATTTTCAAGGAAAATT
GATAATTTCAACTTTTCCTCAAAAATCCCTTTGAAAATTTATCTTTAAGGAAAATTGATACTTTC
AACTTTTCCTCAAAAAACTTTTTTTTGAAAATTTATTTTTAA
Found at i:134377 original size:5 final size:5
Alignment explanation
Indices: 134369--134476 Score: 64
Period size: 5 Copynumber: 21.6 Consensus size: 5
134359 TTATTTAAAG
*
134369 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT -AAA- AAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
** * * *
134416 AAAAT AAAGG AAAGT AAAACA AAAAT AAAAAG AAAAT AAAGAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAAT
* *
134464 AATAT TAAAT AAA
1 AAAAT AAAAT AAA
134477 CCTAATCTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
3 3 0.04
4 10 0.13
5 47 0.59
6 15 0.19
7 4 0.05
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:135068 original size:25 final size:23
Alignment explanation
Indices: 135027--135077 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
135017 ACCGAAATCT
* * *
135027 AAAAATTTTCCAGAAATTTCCAGA
1 AAAAATTTGCCAAAAATCTCCA-A
135051 AAAAATTTCGCCAAAAATCTCCAA
1 AAAAATTT-GCCAAAAATCTCCAA
135075 AAA
1 AAA
135078 TTTTTTTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.24
Consensus pattern (23 bp):
AAAAATTTGCCAAAAATCTCCAA
Found at i:135584 original size:5 final size:5
Alignment explanation
Indices: 135533--135652 Score: 109
Period size: 5 Copynumber: 22.6 Consensus size: 5
135523 ACCTAAGATA
* *
135533 AAAAT AAAAG AAAA- ATATAT ATAAAT AATAAT AATAAT AATAAT AAAAT
1 AAAAT AAAAT AAAAT A-AAAT A-AAAT AA-AAT AA-AAT AA-AAT AAAAT
*
135582 AAAAT -AAAT AAAAAT AGAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
*
135633 AAAAAT GAAAAA AAAAT AAA
1 -AAAAT -AAAAT AAAAT AAA
135653 GAGAAAAAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
4 5 0.05
5 54 0.53
6 42 0.42
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:135643 original size:7 final size:6
Alignment explanation
Indices: 135530--135652 Score: 82
Period size: 6 Copynumber: 20.8 Consensus size: 6
135520 AATACCTAAG
* * *
135530 ATAAAA ATAAAA GA-AAAA TATATATAA ATAATA ATAATA ATAATA ATAAAA
1 ATAAAA ATAAAA -ATAAAA -ATA-A-AA ATAAAA ATAAAA ATAAAA ATAAAA
* *
135581 TAAAATAA ATAAAA AT-AGA AT-AAA AT-AAA AT-AAA AT-AAA AT-AAA
1 -ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
135625 ATAAAA ATAAAA ATGAAA A-AAAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
135653 GAGAAAAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
5 32 0.32
6 51 0.51
7 9 0.09
8 6 0.06
9 2 0.02
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:135660 original size:17 final size:16
Alignment explanation
Indices: 135577--135664 Score: 56
Period size: 15 Copynumber: 5.5 Consensus size: 16
135567 TAATAATAAT
* *
135577 AAAATAAAAT-AAATA
1 AAAAAAAAATAAAAGA
* * *
135592 AAAATAGAATAAAA-T
1 AAAAAAAAATAAAAGA
* *
135607 AAAATAAAATAAAATA
1 AAAAAAAAATAAAAGA
*
135623 AAATAAAAATAAAA-A
1 AAAAAAAAATAAAAGA
135638 TGAAAAAAAAATAAAGAGA
1 --AAAAAAAAATAAA-AGA
135657 AAAAAAAA
1 AAAAAAAA
135665 GGACATAGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
15 23 0.38
16 15 0.25
17 20 0.33
18 1 0.02
19 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAAAAAAATAAAAGA
Found at i:135860 original size:31 final size:33
Alignment explanation
Indices: 135759--135905 Score: 97
Period size: 33 Copynumber: 4.3 Consensus size: 33
135749 ATAGTATTTG
*
135759 AATTAATTAT-TAAA-TTATTATAATAAATAA-T
1 AATTAATTATATAAATTTATAAT-ATAAATAATT
* *
135790 AAGTATGTATTATAATTAATTATATAATATTCAAATAATT
1 AA-T-T-AATTAT-ATAAATT-TATAATA-T-AAATAATT
* * *
135830 TATTCATTAT-TTAA-TTATAATATAAATAATT
1 AATTAATTATATAAATTTATAATATAAATAATT
* *
135861 AATTAATTATATAAATTTATATTATAAATTATT
1 AATTAATTATATAAATTTATAATATAAATAATT
*
135894 ATAATAATTATA
1 A-ATTAATTATA
135906 ATTATTTATT
Statistics
Matches: 92, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
31 18 0.20
32 5 0.05
33 24 0.26
34 15 0.16
35 4 0.04
36 3 0.03
37 7 0.08
38 7 0.08
39 7 0.08
40 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
AATTAATTATATAAATTTATAATATAAATAATT
Found at i:135884 original size:23 final size:22
Alignment explanation
Indices: 135802--135932 Score: 59
Period size: 20 Copynumber: 6.2 Consensus size: 22
135792 GTATGTATTA
135802 TAATTAATTATAT-AA-TAT-T
1 TAATTAATTATATAAATTATAT
* * **
135821 CAAATAATT-TATTCATTAT-T
1 TAATTAATTATATAAATTATAT
*
135841 TAATT-ATAATATAAA-TA-AT
1 TAATTAATTATATAAATTATAT
135860 TAATTAATTATATAAATTTATAT
1 TAATTAATTATATAAA-TTATAT
*
135883 T-ATAAATTATTATAATAATTATAAT
1 TAATTAATTA-TAT-A-AATTAT-AT
* *
135908 T-ATTTATT-TATAATATAATAT
1 TAATTAATTATATAA-ATTATAT
135929 TAAT
1 TAAT
135933 CATAATATTA
Statistics
Matches: 85, Mismatches: 13, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
18 3 0.04
19 18 0.21
20 20 0.24
21 4 0.05
22 16 0.19
23 9 0.11
24 5 0.06
25 10 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTAATTATATAAATTATAT
Found at i:135902 original size:25 final size:26
Alignment explanation
Indices: 135861--135910 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
135851 ATAAATAATT
135861 AATTAATTATATAAATT-TATATTATA
1 AATTAATTATATAAATTATA-ATTATA
135887 AATT-ATTATA-ATAATTATAATTAT
1 AATTAATTATATA-AATTATAATTAT
135911 TTATTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 1 0.05
25 15 0.68
26 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
AATTAATTATATAAATTATAATTATA
Found at i:135919 original size:33 final size:32
Alignment explanation
Indices: 135850--135972 Score: 103
Period size: 31 Copynumber: 3.8 Consensus size: 32
135840 TTAATTATAA
*
135850 TATAAATAATTA-ATTAATTAT-ATAAATTTATAT
1 TATAAAT-ATTATATTAATTATAAT-TATTTAT-T
*
135883 TATAAATTATTATAATAATTATAATTATTTATT
1 TATAAA-TATTATATTAATTATAATTATTTATT
* *
135916 TAT-AATATAATATTAATCATAA-TA-TTATT
1 TATAAATATTATATTAATTATAATTATTTATT
*
135945 TAATAAATATTAAATTATATTATTAATT
1 T-ATAAATATTATATTA-ATTA-TAATT
135973 GTTATATAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
29 6 0.08
30 4 0.05
31 24 0.32
32 5 0.07
33 17 0.23
34 16 0.22
35 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
TATAAATATTATATTAATTATAATTATTTATT
Found at i:136524 original size:181 final size:180
Alignment explanation
Indices: 136211--136600 Score: 431
Period size: 181 Copynumber: 2.2 Consensus size: 180
136201 AAGTTTGTTT
** * ** * * *
136211 GAAATAAAATAATACTAATTTGTTAATATTTAAAAAATTAATTAGTAAGAGATTTAAAAAGTAAA
1 GAAATAAAATAATACTAATTTAATAATATTTAAAAAATTAATAACCAAGAAAATTAAAAAATAAA
** ** * * *
136276 TCTGCTTACCAAACCATTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTCGAATCATTAT
66 TCTAATTACCAAACCATTTCAAATAGTTAAGACTATATGAAAAATTATCTATTTCAAATCATTAT
* * * * **
136341 AACCTTTTATTTTATCATCAAACAATTGGTTCTGTTTATACTATTTTATTC
131 AACATTTTATTTTATCATAAAACAATT-GTTCTGTTCATACAAGCTTATTC
* *
136392 GAAATAAAATAAAACTAATTTAATAATATTCT-AAAACTTAATAACCAAGAAAATTAAAAAATAA
1 GAAATAAAATAATACTAATTTAATAATATT-TAAAAAATTAATAACCAAGAAAATTAAAAAATAA
** * * ** *
136456 ATCTAATTGTCAAACCGTTTGAAATAGTTAAGACTATATGAATGATTATCTATTTCAAATCGTTA
65 ATCTAATTACCAAACCATTTCAAATAGTTAAGACTATATGAAAAATTATCTATTTCAAATCATTA
* * * *
136521 TAACATTTTCTTTTATCATAAAACAATTGTTTTGTTCGTACAAGCTTATTT
130 TAACATTTTATTTTATCATAAAACAATTGTTCTGTTCATACAAGCTTATTC
* *
136572 GGATTAAAATAATACTAATTTAATAATAT
1 GAAATAAAATAATACTAATTTAATAATAT
136601 ATTATATTAT
Statistics
Matches: 171, Mismatches: 37, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
180 42 0.25
181 128 0.75
182 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (180 bp):
GAAATAAAATAATACTAATTTAATAATATTTAAAAAATTAATAACCAAGAAAATTAAAAAATAAA
TCTAATTACCAAACCATTTCAAATAGTTAAGACTATATGAAAAATTATCTATTTCAAATCATTAT
AACATTTTATTTTATCATAAAACAATTGTTCTGTTCATACAAGCTTATTC
Found at i:136715 original size:14 final size:14
Alignment explanation
Indices: 136692--136733 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
136682 TTAATTAACC
136692 ATAA-ATTATTATAT
1 ATAATATTATTAT-T
136706 ATATTATATTATTATT
1 ATA--ATATTATTATT
136722 ATAATATTATTA
1 ATAATATTATTA
136734 AAATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.48
16 5 0.20
17 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATAATATTATTATT
Found at i:136723 original size:11 final size:10
Alignment explanation
Indices: 136696--136733 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
136686 TTAACCATAA
136696 ATTATTATAT
1 ATTATTATAT
136706 A-TATTATATT
1 ATTATTATA-T
136716 ATTATTATAAT
1 ATTATTAT-AT
136727 ATTATTA
1 ATTATTA
136734 AAATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.28
10 3 0.12
11 14 0.56
12 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTATTATAT
Found at i:136780 original size:18 final size:21
Alignment explanation
Indices: 136739--136783 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
136729 TATTAAAATA
*
136739 AATTTAATATATTGATATATT
1 AATTTAATATATTGATATAAT
136760 AATTTAAT-TA-T-ATATAAT
1 AATTTAATATATTGATATAAT
136778 AATTTA
1 AATTTA
136784 TGTATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 1 0.04
20 2 0.09
21 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTAATATATTGATATAAT
Found at i:137051 original size:24 final size:26
Alignment explanation
Indices: 137023--137078 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
137013 ATATTAATCA
*
137023 AATAAATA-TTAATTATTATAATATT
1 AATAAATATTTAATTATAATAATATT
*
137048 -AT-AATATTTAATTATAATTATATT
1 AATAAATATTTAATTATAATAATATT
137072 AATAAAT
1 AATAAAT
137079 GTTTTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 17 0.65
25 2 0.08
26 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAAATATTTAATTATAATAATATT
Found at i:138389 original size:361 final size:350
Alignment explanation
Indices: 137627--139838 Score: 1271
Period size: 361 Copynumber: 6.2 Consensus size: 350
137617 ATCATGATTG
* * * ** * *
137627 TTTGAACAATTATTTATTTCAAATTAGTTATGATCTTTTGTTTCATCCTAAAACAATTGTTTCTA
1 TTTGAACAATTATCTATTTCAAA-CAGTTATGACCTTTT-TTTTGTCATAAAACAATTGTTTCTG
** * * * * *
137692 TTCATACAAGTTTATTTGGAATAAAATAAT--TGA-TTAATACTA--T-AAAAATTAGTTGATAG
64 TTCATACAAGCATATTTAGAATAAAATAATACTAATTTATTAATATTTCAAAAATTA----ATAA
* * * * ** * * * * * *
137751 GATATTTAAAAAATAAATCTGTTTGTC-AAACAAGTTCAAATGGTCATGTCCATTTGAACTATTA
125 GAAATTTAAAAACT-AATTTATTTACCGGAACAA-TTCAAATAGTTATGACTATTTGAACAATTA
* * * * *
137815 TCTATTTCAAATTGTTATGACATTTTGTTTTGTCCTAAAATAATTGTTTCTATTCAAACAAGCTT
188 TTTATTTCAAATTGTTATGACCTTTTG-TTTGTCCTAAAACAATAGTTTCTATTCATACAAGCTT
* * * * *
137880 ATTCTTAATAAAATTATA-TAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTAAAAAA
252 ATT-TTAATAAAATAATACT-AA-TTATTAATATTT-GAAAATTAGTAAGTAGAGATTTAAAAAA
*
137944 TAAATATGTTTTCTGAACATGTTCAAATAGTTATGACTC-
313 TAAATATG-TTTCTGAACAAGTTCAAATAGTTATGAC-CA
* * * *
137983 TTTAAACAATTATCTATTTCAAATAGTTATGACCCTTTGTTTTGTCATAAACCAATTGTTTCTGT
1 TTTGAACAATTATCTATTTCAAACAGTTATGA-CCTTTTTTTTGTCATAAAACAATTGTTTCTGT
138048 TCATACAAGCATATTT-GAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAA
65 TCATACAAGCATATTTAG-AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG---
* *
138112 AAAATTTTAAAAA-TAATTCTATTTA-CTGAGCTAATTCAAATCA-TTATGACTATTTGAACAAT
126 -AAA-TTTAAAAACTAATT-TATTTACCGGAAC-AATTCAAAT-AGTTATGACTATTTGAACAAT
* * * *
138174 TTTTTATTTCAAATAGTTATGACCTTTTGTTGTGTCCTAATACAATAGTTTCTATTCATACAAGT
186 TATTTATTTCAAATTGTTATGACCTTTTGTT-TGTCCTAAAACAATAGTTTCTATTCATACAAGC
* *
138239 TTATTTGGAATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTACA-TAGGAGATTTAAA
250 TTATTT-TAATAAAATAATACTAATT-ATTAATA-TTTGAAAATTAGTA-AGTA-GAGATTTAAA
* * * * * *
138303 AAATAAATCTATTTACTGAATAAGTCCAAATAGTCATGTCCA
310 AAATAAATATGTTT-CTGAACAAGTTCAAATAGTTATGACCA
*
138345 TTTGAACAATTATCTATTTCAAACAGTTATGGCCTTTTTTTTGTCATAAAACAATTGTTTCTGTT
1 TTTGAACAATTATCTATTTCAAACAGTTATGACCTTTTTTTTGTCATAAAACAATTGTTTCTGTT
* * * * * * *
138410 CATGCAA-AATTATTCAGAATAAAATAATACTTATCTATTAATATTTTAAAAATTAATAAGAGAT
66 CATACAAGCA-TATTTAGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAAT
* * * *
138474 TTAAAAACTTAATTTATTTACCGGAACAGTTCAAATAGTTATGGCTATTTGAACAATTATTTGTA
130 TTAAAAAC-TAATTTATTTACCGGAACAATTCAAATAGTTATGACTATTTGAACAATTATTTATT
* * * * * *
138539 TCAAATTGTTATGATCTTTAT-TTTGTCATAAAACAATTA-TTTCTTTTCATATAAACTTATTCA
194 TCAAATTGTTATGACCTTT-TGTTTGTCCTAAAACAA-TAGTTTCTATTCATACAAGCTTATT-T
* *
138602 TATTAAAATAATAC-AATTAATAATA-TTGCAAAAATTAGTAAGTAAGAGATTTAAAAAATAAAT
256 TAATAAAATAATACTAATTATTAATATTTG--AAAATTAGTAAGT-AGAGATTTAAAAAATAAAT
* * * * *
138665 GTGTTTGTCGAACCAGTTCAAATAGTTAAGACTA
318 ATGTTTCT-GAACAAGTTCAAATAGTTATGACCA
* * * * * * * * **
138699 TTAGGATAATTATCTATTTCAGATCA-TTTTGACCTTTTGTTTAGTCACAAAACAATTATTTCAA
1 TTTGAACAATTATCTATTTCA-AACAGTTATGACCTTTT-TTTTGTCATAAAACAATTGTTTCTG
* * * * * *
138763 TTCATACAAGCTTATTTAGAATAAATTAATATTAATTTATTAACATTTGAAATATTAATAAGCAT
64 TTCATACAAGCATATTTAGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG-A-
* * * * * * * * *
138828 GAGATTTAAAAAAATAAATCTGTTTATC-GAATAAATTAAAATAGATT-TGATTATTTAAATAAT
127 -A-ATTT-AAAAACT-AATTTATTTACCGGAA-CAATTCAAATAG-TTATGACTATTTGAACAAT
* ** * * * * *
138891 TATCTATTT-AAAGTCATTATAACCTTTTGTTTTGTCATAAAACAATTGTTTC-AGTTTATAAAA
186 TATTTATTTCAAA-TTGTTATGACCTTTTG-TTTGTCCTAAAACAATAGTTTCTA-TTCATACAA
* * ** * * * *
138954 ACTTACCTGAAATAAAATAATACTATTTTATTAATTTTTTGAAAATTAATAAGCA-AGATTTTTA
248 GCTTA-TTTTAATAAAATAATACTA-ATTATTAA-TATTTGAAAATTAGTAAGTAGAGA--TTTA
* ** ** * * *
139018 AAAACTAAA-ATTGTTTTCCAAATTAGTTCAAATAATTATGGCTA
308 AAAAATAAATA-TG-TTTCTGAACAAGTTCAAATAGTTATGACCA
* * * * ** * * * * * * * * *
139062 TTTGAATAACTATCAATCTCAAATTGTTTTAATCTTTGTTTTCTCATTAAATAATTATTTCTGAT
1 TTTGAACAATTATCTATTTCAAACAGTTATGACCTTTTTTTTGTCATAAAACAATTGTTTCTGTT
* * * * *
139127 CATACAAGCTTATTTAG-ATAAAAATATTACTAATTTAATAATATTCCAAAAATTAATAAGAGAT
66 CATACAAGCATATTTAGAAT-AAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAAT
* * * * * * * * * * * **
139191 TCAAAAAATAAATGTGTTTATC-AAACCAGTTCAAATAATTAAGACTATTAGAATAATTATCAAT
130 TTAAAAACT-AATTTATTTACCGGAA-CAATTCAAATAGTTATGACTATTTGAACAATTATTTAT
** * * * * ** * * *
139255 TTCAAATCATTCTAACCTTTTCTTTAGTCGTGTAATAATTGCTTC-AGTTCATACAAGCTTATTT
193 TTCAAATTGTTATGACCTTTTGTTT-GTCCTAAAACAATAGTTTCTA-TTCATACAAGCTTATTT
* * * ** *
139319 GGAATAAAATAATATTAACTTATTAACATTAAAAAAATTAATAA-TCATGAGATTTAAAAAAATA
256 -TAATAAAATAATACTAA-TTATTAATATT-TGAAAATTAGTAAGT-A-GAGATTT-AAAAAATA
* * * * * *
139383 AATTTGTTTATCGAACAAGTTCGAATAATTATGGCTA
315 AATATGTTTCT-GAACAAGTTCAAATAGTTATGACCA
* * * * *
139420 TTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTGTCATAAAACAATTGTTT-TAG
1 TTTGAACAATTATCTATTTCAAACAGTTATGACC-TTTTTTTTGTCATAAAACAATTGTTTCT-G
* ** ** * *
139484 TTCATAAAAGTTTA-TCCGAAATAAAATAATACTACTTTAGTAATATTTCAAAAATTAATAAGTA
64 TTCATACAAGCATATTTAG-AATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG--
* * * * * * * *
139548 ACTAATTTTAAAAAATAAATCAGTTTACC-CAATCAGTTCAAATAATTAT-AGCCATTTAAACAA
126 A--AA-TTTAAAAACTAATTTA-TTTACCGGAA-CAATTCAAATAGTTATGA-CTATTTGAACAA
* * * * * * * *
139611 CTATCTATTTCAAATTGTTATTACCTTTTGTTTTGTCATAAAATAATTGTTTTTCA-ACATACAA
185 TTATTTATTTCAAATTGTTATGACCTTTTG-TTTGTCCTAAAACAATAGTTTCT-ATTCATACAA
* * * * *
139675 GCTTATTTGAAATAAAATAATACCAATTTATTAATATTTTAAGAATTAAT-A--AGACATTTAAA
248 GCTTATTT-TAATAAAATAATACTAA-TTATTAATATTTGAA-AATTAGTAAGTAGAGATTTAAA
* * *
139737 AAATAAATCA-GTTTATTGAACTAGTTCAAATAGTTATGACTA
310 AAATAAAT-ATGTTT-CTGAACAAGTTCAAATAGTTATGACCA
* * ** ** *
139779 TTTGCACAATTTTCTATTTCAAATTGTTACAACCTTTTGTTCTGTCATAAAACAATTGTT
1 TTTGAACAATTATCTATTTCAAACAGTTATGACCTTTT-TTTTGTCATAAAACAATTGTT
139839 AATAATTTAA
Statistics
Matches: 1460, Mismatches: 299, Indels: 191
0.75 0.15 0.10
Matches are distributed among these distances:
352 3 0.00
353 2 0.00
354 85 0.06
355 133 0.09
356 84 0.06
357 195 0.13
358 84 0.06
359 167 0.11
360 72 0.05
361 265 0.18
362 154 0.11
363 82 0.06
364 127 0.09
365 6 0.00
366 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (350 bp):
TTTGAACAATTATCTATTTCAAACAGTTATGACCTTTTTTTTGTCATAAAACAATTGTTTCTGTT
CATACAAGCATATTTAGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAAATT
TAAAAACTAATTTATTTACCGGAACAATTCAAATAGTTATGACTATTTGAACAATTATTTATTTC
AAATTGTTATGACCTTTTGTTTGTCCTAAAACAATAGTTTCTATTCATACAAGCTTATTTTAATA
AAATAATACTAATTATTAATATTTGAAAATTAGTAAGTAGAGATTTAAAAAATAAATATGTTTCT
GAACAAGTTCAAATAGTTATGACCA
Found at i:138986 original size:182 final size:179
Alignment explanation
Indices: 137472--139838 Score: 1344
Period size: 182 Copynumber: 13.2 Consensus size: 179
137462 GTTCAAATAG
* * * *
137472 TTATGACCCTTTGTTTTGTCA-AAAACCAATTGTTTCTA-TTCATACAA-ATGTATTCAAAATAA
1 TTATAACCTTTTGTTTTGTCATAAAA-CAATTGTTTC-AGTTCATACAAGCT-TATT-GAAATAA
* * * * * * * *
137534 AATAATACTAATTTCTTAATATTCCAAAAATTAATGAGTAAAAAATTT-TAAAAATAAATTTGTT
62 AATAATACTAATTTATTAATATTTCAAAAATTAATAAG-CAGAGATTTAAAAAAATAAATCTGTT
* * ** * * * * * * * * *
137598 TACCGAGTTGGTTTAAATCATCATGATTGTTTGAACAATTATTTATTTCAAATTA
126 TATCGAATAAGTTCAAATAATTATGACTATTTAAATAATTATCTATTT-AAATCA
* * ** * * *
137653 GTTATGATCTTTTGTTTCATCCTAAAACAATTGTTTCTA-TTCATACAAGTTTATTTGGAATAAA
1 -TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTC-AGTTCATACAAGCTTA-TTGAAATAAA
* * * * *
137717 ATAAT--TGA-TTAATACTA--T-AAAAATTAGTTGATAG--GATATTT-AAAAAATAAATCTGT
63 ATAATACTAATTTATTAATATTTCAAAAATTA-AT-A-AGCAGAGATTTAAAAAAATAAATCTGT
* * * ** * * * * **
137773 TTGTCAAACAAGTTCAAATGGTCATGTCCATTTGAACT-ATTATCTATTTCAAATTG
125 TTATCGAATAAGTTCAAATAATTATGACTATTT-AAATAATTATCTATTT-AAATCA
* * * * * **
137829 TTATGACATTTTGTTTTGTCCTAAAATAATTGTTTCTA-TTCAAACAAGCTTATTCTTAATAAAA
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTC-AGTTCATACAAGCTTATT-GAAATAAAA
* * * * *
137893 TTATA-TAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTT-AAAAAATAAATATGTTT-
64 TAATACT-AATTTATTAATATTTCAAAAATTAATAAGCAGAGATTTAAAAAAATAAATCTGTTTA
* * * * *
137955 TCTGAACATGTTCAAATAGTTATGACTCTTTAAACAATTATCTATTTCAAAT-A
128 TC-GAATAAGTTCAAATAATTATGACTATTTAAATAATTATCTATTT-AAATCA
* * * * *
138008 GTTATGACCCTTTGTTTTGTCATAAACCAATTGTTTCTGTTCATACAAGCATATTTGAAATAAAA
1 -TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTA-TTGAAATAAAA
* * * * * *
138073 TAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTT-TAAAAATAATTCTATTTA
64 TAATACTAATTTATTAATATTTCAAAAATTAATAAG-CAGAGATTTAAAAAAATAAATCTGTTTA
* * * * * *
138137 -CTGAGCTAA-TTCAAATCATTATGACTATTTGAACAATTTTTTATTTCAAAT-A
128 TC-GA-ATAAGTTCAAATAATTATGACTATTTAAATAATTATCTATTT-AAATCA
* * * * * * *
138189 GTTATGACCTTTTGTTGTGTCCTAATACAATAGTTTCTA-TTCATACAAGTTTATTTGGAATAAA
1 -TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTC-AGTTCATACAAGCTTA-TTGAAATAAA
* * * * * *
138253 ATAATACTAATTGATTAATACTTT-GAAAGTTAGTACA-TAGGAGATTT-AAAAAATAAATCTAT
63 ATAATACTAATTTATTAATA-TTTCAAAAATTAATA-AGCA-GAGATTTAAAAAAATAAATCTGT
* * * * * * *
138315 TTA-CTGAATAAGTCCAAATAGTCATGTCCATTTGAACAATTATCTATTTCAAA-CA
125 TTATC-GAATAAGTTCAAATAATTATGACTATTTAAATAATTATCTATTT-AAATCA
** * * ** *
138370 GTTATGGCCTTTT-TTTTGTCATAAAACAATTGTTTCTGTTCATGCAAAATTATTCAGAATAAAA
1 -TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTGA-AATAAAA
* * * * * * * *
138434 TAATACTTATCTATTAATATTTTAAAAATTAAT-A--AGAGATTT-AAAAACTTAATTTATTTAC
64 TAATACTAATTTATTAATATTTCAAAAATTAATAAGCAGAGATTTAAAAAAATAAATCTGTTTAT
* * * * * * * * **
138495 CGGAA-CAGTTCAAATAGTTATGGCTATTTGAACAATTATTTGTATCAAATTG
129 C-GAATAAGTTCAAATAATTATGACTATTTAAATAATTATCTAT-TTAAATCA
* * * * ** * * * *
138547 TTATGATC-TTTATTTTGTCATAAAACAATTATTTCTTTTCATATAAACTTATTCATATTAAAAT
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTGA-AATAAAAT
* * * * * *
138611 AATAC-AA-TTAATAATATTGCAAAAATTAGTAAGTAAGAGATTT-AAAAAATAAATGTGTTTGT
65 AATACTAATTTATTAATATTTCAAAAATTAATAAG-CAGAGATTTAAAAAAATAAATCTGTTTAT
** * * * *
138673 CGAACCAGTTCAAATAGTTAAGACTA-TTAGGATAATTATCTATTTCAGATCA
129 CGAATAAGTTCAAATAATTATGACTATTTA-AATAATTATCTATTT-AAATCA
* * * * * * * *
138725 TTTTGACCTTTTGTTTAGTCACAAAACAATTATTTCAATTCATACAAGCTTATTTAGAATAAATT
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTGA-AATAAAAT
* * * *
138790 AATATTAATTTATTAACATTTGAAATATTAATAAGCATGAGATTTAAAAAAATAAATCTGTTTAT
65 AATACTAATTTATTAATATTTCAAAAATTAATAAGCA-GAGATTTAAAAAAATAAATCTGTTTAT
* * *
138855 CGAATAAATTAAAATAGATT-TGATTATTTAAATAATTATCTATTTAAAGTCA
129 CGAATAAGTTCAAATA-ATTATGACTATTTAAATAATTATCTATTTAAA-TCA
* * * *
138907 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTTATAAAAACTTACCTGAAATAAAAT
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTA-TTGAAATAAAAT
* * ** * *
138972 AATACTATTTTATTAATTTTTTGAAAATTAATAAGCA-AGATTTTTAAAAACTAAAAT-TGTTT-
65 AATACTAATTTATTAATATTTCAAAAATTAATAAGCAGAGA-TTTAAAAAAAT-AAATCTGTTTA
* * * * * * * **
139034 TCCAAATTAGTTCAAATAATTATGGCTATTTGAATAACTATCAATCTCAAATTG
128 T-CGAATAAGTTCAAATAATTATGACTATTTAAATAATTATCTAT-TTAAATCA
* * * * * * * * * *
139088 TTTTAATC-TTTGTTTTCTCATTAAATAATTATTTCTGATCATACAAGCTTATTTAGATAAAAAT
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTGAAAT-AAAAT
* * * * *
139152 ATTACTAATTTAATAATATTCCAAAAATTAAT-A--AGAGA-TTCAAAAAATAAATGTGTTTATC
65 AATACTAATTTATTAATATTTCAAAAATTAATAAGCAGAGATTTAAAAAAATAAATCTGTTTATC
* ** * *
139213 AAACCAGTTCAAATAATTAAGACTA-TTAGAATAATTATCAATTTCAAATCA
130 GAATAAGTTCAAATAATTATGACTATTTA-AATAATTATCTATTT-AAATCA
* * * * ** * * *
139264 TTCTAACCTTTTCTTTAGTCGTGTAATAATTGCTTCAGTTCATACAAGCTTATTTGGAATAAAAT
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTA-TTGAAATAAAAT
* * * ** * *
139329 AATATTAACTTATTAACATTAAAAAAATTAATAATCATGAGATTTAAAAAAATAAATTTGTTTAT
65 AATACTAATTTATTAATATTTCAAAAATTAATAAGCA-GAGATTTAAAAAAATAAATCTGTTTAT
* * * * * * *
139394 CGAACAAGTTCGAATAATTATGGCTATTTGAACAATTATTTATTTAAAATAA
129 CGAATAAGTTCAAATAATTATGACTATTTAAATAATTATCTATTT-AAATCA
* * * * * *
139446 TTATGACCATTTGTTTTGTCATAAAACAATTGTTTTAGTTCATAAAAGTTTATCCGAAATAAAAT
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTAT-TGAAATAAAAT
* * * * * *
139511 AATACTACTTTAGTAATATTTCAAAAATTAATAAGTA-ACTAATTTTAAAAAATAAATCAGTTTA
65 AATACTAATTTATTAATATTTCAAAAATTAATAAGCAGA--GATTTAAAAAAATAAATCTGTTTA
* * * * * * **
139575 CCCAATCAGTTCAAATAATTAT-AGCCATTTAAACAACTATCTATTTCAAATTG
128 TCGAATAAGTTCAAATAATTATGA-CTATTTAAATAATTATCTATTT-AAATCA
* * *
139628 TTATTACCTTTTGTTTTGTCATAAAATAATTGTTTTTCA--ACATACAAGCTTATTTGAAATAAA
1 TTATAACCTTTTGTTTTGTCATAAAACAATTG--TTTCAGTTCATACAAGCTTA-TTGAAATAAA
* * * * *
139691 ATAATACCAATTTATTAATATTTTAAGAATTAAT-A--AGACATTT-AAAAAATAAATCAGTTTA
63 ATAATACTAATTTATTAATATTTCAAAAATTAATAAGCAGAGATTTAAAAAAATAAATCTGTTTA
* * ** * * **
139752 TTGAACT-AGTTCAAATAGTTATGACTATTTGCACAATTTTCTATTTCAAATTG
128 TCGAA-TAAGTTCAAATAATTATGACTATTTAAATAATTATCTATTT-AAATCA
* *
139805 TTACAACCTTTTGTTCTGTCATAAAACAATTGTT
1 TTATAACCTTTTGTTTTGTCATAAAACAATTGTT
139839 AATAATTTAA
Statistics
Matches: 1721, Mismatches: 381, Indels: 173
0.76 0.17 0.08
Matches are distributed among these distances:
174 20 0.01
175 69 0.04
176 231 0.13
177 166 0.10
178 83 0.05
179 73 0.04
180 286 0.17
181 310 0.18
182 462 0.27
183 17 0.01
184 4 0.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (179 bp):
TTATAACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATACAAGCTTATTGAAATAAAATA
ATACTAATTTATTAATATTTCAAAAATTAATAAGCAGAGATTTAAAAAAATAAATCTGTTTATCG
AATAAGTTCAAATAATTATGACTATTTAAATAATTATCTATTTAAATCA
Found at i:139180 original size:717 final size:717
Alignment explanation
Indices: 137783--139745 Score: 1537
Period size: 717 Copynumber: 2.7 Consensus size: 717
137773 TTGTCAAACA
* * * * *
137783 AGTTCAAATGGTCATGTCCATTTGAACTATTATCTATTTCAAATTGTTATGACATTTTGTTTTGT
1 AGTTCAAATAGTCATGGCCATTTGAACAATTATCTATATCAAATTGTTATGACA-TTTATTTTGT
* * * * * *
137848 CCTAAAATAATTGTTTCTATTCAAACAAGCTTATTCTTAATAAAATTATATAAATTTATTAATAT
65 CATAAAACAATTATTTCTATTCAAACAAACTTATTCATAATAAAATTATATAAATTTAATAATAT
* *
137913 TTCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTTCTGAACATGTTCAAATAGTTAT
130 TGCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTTCTGAACATGTTCAAATAGTTAA
* * * * *
137978 GACTCTTTAAACAATTATCTATTTCAAATAGTTATGACCCTTTGTTTTGTCATAAACCAATTGTT
195 GACTCATTAAACAATTATCTATTTCAAATAGTTATGACCCTTTGTTTAGTCACAAAACAATTATT
** *
138043 TCTGTTCATACAAGCATATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAA
260 TCAATTCATACAAGCATATTTGAAATAAAATAATACTAATTTATTAACATTTCAAAAATTAATAA
* * * * * *
138108 GTAAAAAATTTTAAAAATAATTCTATTTACTGAGCTAATTCAAATCATTATGACTATTTGAACAA
325 GCAAAAAATTTAAAAAATAAATCTATTTACTGAGATAATTAAAATCATTATGACTATTTAAACAA
* * * * * * *
138173 TTTTTTATTTCAAATAGTTATGACCTTTTGTTGTGTCCTAATACAATAGTTTCTATTCATACAAG
390 TTATCTATTTCAAATAGTTATAACCTTTTGTTGTGTCATAAAACAATAGTTTCTATTCATAAAAA
* ** * * *
138238 TTTATTTGGAATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTACATAGGAGATTTAAA
455 CTTACCTGAAATAAAATAATACTAATTGATTAATACTTTGAAAATTAATACATAGGAGATTTAAA
** * * * * *
138303 AAATAAATCTATTTACTGAATAAGTCCAAATAGTCATGTCCATTTGAACAATTATCTATTTCAAA
520 AAATAAATCTATTTACCAAATAAGTCCAAATAATCATGGCCATTTGAACAACTATCAATCTCAAA
** * * * * *
138368 CAGTTATGGCCTTTTTTTTGTCATAAAACAATTGTTTCTGTTCATGCAAAATTATTCAGAATAAA
585 CAGTTATAACCTTTGTTTTCTCATAAAACAATTATTTCTGATCATACAAAATTATTCAGAATAAA
* * ** *
138433 ATAATACTTATCTATTAATATTTTAAAAATTAATAAGAGATTTAAAAACTTAATTTATTTACCGG
650 ATAATACTAATCTAATAATATTCCAAAAATTAATAAGAGATTCAAAAACTTAATTTATTTACCGG
138498 AAC
715 AAC
* * * *
138501 AGTTCAAATAGTTATGGCTATTTGAACAATTATTTGTATCAAATTGTTATGATC-TTTATTTTGT
1 AGTTCAAATAGTCATGGCCATTTGAACAATTATCTATATCAAATTGTTATGA-CATTTATTTTGT
* * * *
138565 CATAAAACAATTATTTCTTTTCATATAAACTTATTCATATTAAAA-TA-ATACAA-TTAATAATA
65 CATAAAACAATTATTTCTATTCAAACAAACTTATTCATAATAAAATTATATA-AATTTAATAATA
* * *
138627 TTGCAAAAATTAGTAAGTAAGAGATTTAAAAAATAAATGTGTTTGTC-GAACCA-GTTCAAATAG
129 TTGCAAAAATTAATAAGTAA-AAATTTAAAAAATAAATATGTTT-TCTGAA-CATGTTCAAATAG
* * * * *
138690 TTAAGACT-ATTAGGATAATTATCTATTTCAGATCA-TTTTGACCTTTTGTTTAGTCACAAAACA
191 TTAAGACTCATTA-AACAATTATCTATTTCAAAT-AGTTATGACCCTTTGTTTAGTCACAAAACA
* * * * *
138753 ATTATTTCAATTCATACAAGCTTATTT-AGAATAAATTAATATTAATTTATTAACATTTGAAATA
254 ATTATTTCAATTCATACAAGCATATTTGA-AATAAAATAATACTAATTTATTAACATTTCAAAAA
** * * * *
138817 TTAATAAGCATGAGATTTAAAAAAATAAATCTGTTTA-TCGA-ATAAATTAAAATAGATT-TGAT
318 TTAATAAGCAAAAAATTT-AAAAAATAAATCTATTTACT-GAGAT-AATTAAAAT-CATTATGAC
* * *
138879 TATTTAAATAATTATCTATTT-AAAGTCA-TTATAACCTTTTGTTTTGTCATAAAACAATTGTTT
379 TATTTAAACAATTATCTATTTCAAA-T-AGTTATAACCTTTTGTTGTGTCATAAAACAATAGTTT
* * * **
138942 C-AGTTTATAAAAACTTACCTGAAATAAAATAATACTATTTTATTAATTTTTTGAAAATTAATAA
442 CTA-TTCATAAAAACTTACCTGAAATAAAATAATACTAATTGATTAATACTTTGAAAATTAAT-A
** * * * * * * *
139006 GCA-A-GATTTTTAAAAACTAAAAT-TGTTTTCCAAATTAGTTCAAATAATTATGGCTATTTGAA
505 -CATAGGAGATTTAAAAAAT-AAATCTATTTACCAAATAAGTCCAAATAATCATGGCCATTTGAA
* ** * * * *
139068 TAACTATCAATCTCAAATTGTTTTAATCTTTGTTTTCTCATTAAATAATTATTTCTGATCATACA
568 CAACTATCAATCTCAAACAGTTATAACCTTTGTTTTCTCATAAAACAATTATTTCTGATCATACA
** * * *
139133 AGCTTATTTAG-ATAAAAATATTACTAATTTAATAATATTCCAAAAATTAATAAGAGATTCAAAA
633 AAATTATTCAGAAT-AAAATAATACTAATCTAATAATATTCCAAAAATTAATAAGAGATTCAAAA
* * * * * *
139197 AATAAATGTGTTTATC-AAACC
697 ACTTAATTTATTTACCGGAA-C
* * * * * * * * * ** * * *
139218 AGTTCAAATAATTAAGACTATTAGAATAATTATCAATTTCAAATCATTCTAACCTTT-TCTTTAG
1 AGTTCAAATAGTCATGGCCATTTGAACAATTATCTATATCAAATTGTTATGACATTTAT-TTT-G
* ** * ** * * *** * * * * *
139282 TCGTGTAATAATTGCTTC-AGTTCATACAAGCTTATTTGGAATAAAATAATATTAACTTATTAAC
64 TCATAAAACAATTATTTCTA-TTCAAACAAACTTATTCATAATAAAATTATATAAATTTAATAAT
** * * * * *
139346 ATTAAAAAAATTAATAA-TCATGAGATTTAAAAAAATAAATTTGTTTATC-GAACAAGTTCGAAT
128 ATTGCAAAAATTAATAAGT-A-AAAATTT-AAAAAATAAATATGTTT-TCTGAACATGTTCAAAT
* * * * * * * * * *
139409 AATTATGGCT-ATTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTGTCATAAAAC
189 AGTTAAGACTCA-TTAAACAATTATCTATTTCAAATAGTTATGACCCTTTGTTTAGTCACAAAAC
* * * * ** ** * * *
139473 AATTGTTTTAGTTCATAAAAGTTTATCCGAAATAAAATAATACTACTTTAGTAATATTTCAAAAA
253 AATTATTTCAATTCATACAAGCATATTTGAAATAAAATAATACTAATTTATTAACATTTCAAAAA
* * * ** * * *
139538 TTAATAAGTAACTAATTTTAAAAAATAAATC-AGTTTACCCA-ATCAGTTCAAATAATTAT-AGC
318 TTAATAAGCAA-AAAATTTAAAAAATAAATCTA-TTTACTGAGAT-AATTAAAATCATTATGA-C
* * * * * * * *
139600 CATTTAAACAACTATCTATTTCAAATTGTTATTACCTTTTGTTTTGTCATAAAATAATTGTTTTT
379 TATTTAAACAATTATCTATTTCAAATAGTTATAACCTTTTGTTGTGTCATAAAACAATAGTTTCT
* * * ** * * *
139665 CA-ACATACAAGCTTATTTGAAATAAAATAATACCAATTTATTAATA-TTTTAAGAATTAAT--A
444 -ATTCATAAAAACTTACCTGAAATAAAATAATACTAATTGATTAATACTTTGAA-AATTAATACA
*
139726 -A-GACATTTAAAAAATAAATC
507 TAGGAGATTTAAAAAATAAATC
139746 AGTTTATTGA
Statistics
Matches: 982, Mismatches: 218, Indels: 91
0.76 0.17 0.07
Matches are distributed among these distances:
715 33 0.03
716 168 0.17
717 382 0.39
718 87 0.09
719 7 0.01
720 41 0.04
721 253 0.26
722 10 0.01
723 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (717 bp):
AGTTCAAATAGTCATGGCCATTTGAACAATTATCTATATCAAATTGTTATGACATTTATTTTGTC
ATAAAACAATTATTTCTATTCAAACAAACTTATTCATAATAAAATTATATAAATTTAATAATATT
GCAAAAATTAATAAGTAAAAATTTAAAAAATAAATATGTTTTCTGAACATGTTCAAATAGTTAAG
ACTCATTAAACAATTATCTATTTCAAATAGTTATGACCCTTTGTTTAGTCACAAAACAATTATTT
CAATTCATACAAGCATATTTGAAATAAAATAATACTAATTTATTAACATTTCAAAAATTAATAAG
CAAAAAATTTAAAAAATAAATCTATTTACTGAGATAATTAAAATCATTATGACTATTTAAACAAT
TATCTATTTCAAATAGTTATAACCTTTTGTTGTGTCATAAAACAATAGTTTCTATTCATAAAAAC
TTACCTGAAATAAAATAATACTAATTGATTAATACTTTGAAAATTAATACATAGGAGATTTAAAA
AATAAATCTATTTACCAAATAAGTCCAAATAATCATGGCCATTTGAACAACTATCAATCTCAAAC
AGTTATAACCTTTGTTTTCTCATAAAACAATTATTTCTGATCATACAAAATTATTCAGAATAAAA
TAATACTAATCTAATAATATTCCAAAAATTAATAAGAGATTCAAAAACTTAATTTATTTACCGGA
AC
Found at i:139249 original size:539 final size:529
Alignment explanation
Indices: 137480--139802 Score: 1831
Period size: 539 Copynumber: 4.3 Consensus size: 529
137470 AGTTATGACC
* * **
137480 CTTTGTTTTGTCA-AAAACCAATTGTTTCT-ATTCATACAA-ATGTATTCAAAATAAAATAATAC
1 CTTTGTTTTGTCATAAAA-CAATTATTTCTGA-TCATACAAGCT-TATTTGAAATAAAATAATAC
** * * * * * * ***
137542 TAATTTCTTAATATTCCAAAAATTAATGAGTAAAAAATTTTAAAAATAAATTTGTTTACCGAGTT
63 TAATTTAATAATATTTCAAAAATT-A--A-TAAGAGATTTAAAAAATAAATCTGTTTATCGAACC
* * * * * * * * * * *
137607 GGTTTAAATCATCATGATTGTTTGAACAATTATTTATTTCAAATTAGTTATGATCTTTTGTTTCA
124 AGTTCAAATAATTAAGACTATTAGAACAATTATCTATTTCAAATCA-TTATGACCTTTTGTTT-A
* * * * *
137672 -TCCTAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAAT-A-ATTGA-TTAAT-AC
187 GTCC-AAAACAATTATTTCAATTCATACAAGCTTATTTGGAATAAAATAATATTAATTTATTAAC
* * * * * * * * * * *
137732 -TATAAAAATTAGTTGATAGGATATTT-AAAAAATAAATCTGTTTGTCAAACAAGTTCAAAT-GG
251 ATTTGAAAATTA-ATAACATGAGATTTAAAAAAATAAATCTGTTTATCGAATAAGTTCAAATAGA
* * * ** * * *
137794 TCATGTCCATTTGAACTATTATCTATTTCAAATTGTTATGACATTTTGTTTTGTCCTAAAATAAT
315 T-TTGT-TATTTGAACAATTATCTATTT-AAATCATTATGACCTTTTGTTTTGTCATAAAACAAT
* * * * * *
137859 TGTTTCTA-TTCA-AACAAGCTTATTCT-TAATAAAATTATA-TAAATTTATTAATATTTCAAAA
377 TGTTTC-AGTTCATAA-AA-ATTA-CCTGAAATAAAATAATACT-ATTTTATTAATATTTTAAAA
* * * * ** * * *
137920 ATTAATAAGTAAAAATTTAAAAAATAAATATGTTTTCTGAA-CATGTTCAAATAGTTATGACTCT
437 ATTAATAAG-AAGATTTTAAAAACTAAAT-TGTTTACCAAATCA-GTTCAAATAATTATGGCTAT
* * * * * *
137984 TTAAACAATTATCTATTTCAAATAGTTATGACC
499 TTGAACAACTATCTATATCAAATTGTT-TTA-T
* * * *
138017 CTTTGTTTTGTCATAAACCAATTGTTTCTGTTCATACAAGCATATTTGAAATAAAATAATACTAA
1 CTTTGTTTTGTCATAAAACAATTATTTCTGATCATACAAGCTTATTTGAAATAAAATAATACTAA
* * * * * * * *
138082 TTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAATTCTATTTA-CTGAGCTAA
66 TTTAATAATATTTCAAAAATTAATAAG----AGATTTAAAAAATAAATCTGTTTATC-GAACCAG
* * * * *
138146 TTCAAATCATTATGACTATTTGAACAATTTTTTATTTCAAAT-AGTTATGACCTTTTGTTGT-GT
126 TTCAAATAATTAAGACTATTAGAACAATTATCTATTTCAAATCA-TTATGACCTTTTGTT-TAGT
* * * * * *
138209 CCTAATACAA-TAGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACTAATTGATTAATA
189 CC-AAAACAATTA-TTTCAATTCATACAAGCTTATTTGGAATAAAATAATATTAATTTATTAACA
* * * *
138273 CTTTGAAAGTTAGT-ACATAGGAGATTT-AAAAAATAAATCTATTTA-CTGAATAAGTCCAAATA
252 -TTTGAAAATTAATAACAT--GAGATTTAAAAAAATAAATCTGTTTATC-GAATAAGTTCAAATA
* * *
138335 G-TCATGTCCATTTGAACAATTATCTATTTCAAA-CAGTTATGGCCTTTT-TTTTGTCATAAAAC
313 GAT-TTGT-TATTTGAACAATTATCTATTT-AAATCA-TTATGACCTTTTGTTTTGTCATAAAAC
* * * * *
138397 AATTGTTTCTGTTCATGCAAAATTA-TTCAGAATAAAATAATACT-TATCTATTAATATTTTAAA
374 AATTGTTTCAGTTCAT-AAAAATTACCTGA-AATAAAATAATACTAT-TTTATTAATATTTTAAA
* * * *
138460 AATTAATAAG-AGA-TTTAAAAACTTAATTTATTTACCGGAA-CAGTTCAAATAGTTATGGCTAT
436 AATTAATAAGAAGATTTTAAAAAC-TAAATTGTTTACC-AAATCAGTTCAAATAATTATGGCTAT
* * * *
138522 TTGAACAATTATTTGTATCAAATTGTTATGAT
499 TTGAACAACTATCTATATCAAATTGTT-TTAT
* ** * * * *
138554 CTTTATTTTGTCATAAAACAATTATTTCTTTTCATATAAACTTA-TTCATATTAAAATAATAC-A
1 CTTTGTTTTGTCATAAAACAATTATTTCTGATCATACAAGCTTATTTGA-AATAAAATAATACTA
* * *
138617 A-TTAATAATATTGCAAAAATTAGTAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGAACCAG
65 ATTTAATAATATTTCAAAAA-T--TAA-TAAGAGATTTAAAAAATAAATCTGTTTATCGAACCAG
* * * * *
138681 TTCAAATAGTTAAGACTATTAGGATAATTATCTATTTCAGATCATTTTGACCTTTTGTTTAGTCA
126 TTCAAATAATTAAGACTATTAGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTC-
* *
138746 CAAAACAATTATTTCAATTCATACAAGCTTATTTAGAATAAATTAATATTAATTTATTAACATTT
190 CAAAACAATTATTTCAATTCATACAAGCTTATTTGGAATAAAATAATATTAATTTATTAACATTT
* *
138811 GAAATATTAATAAGCATGAGATTTAAAAAAATAAATCTGTTTATCGAATAAATTAAAATAGATTT
255 GAAA-ATTAATAA-CATGAGATTTAAAAAAATAAATCTGTTTATCGAATAAGTTCAAATAGATTT
* * *
138876 GATTATTTAAATAATTATCTATTTAAAGTCATTATAACCTTTTGTTTTGTCATAAAACAATTGTT
318 G-TTATTTGAACAATTATCTATTTAAA-TCATTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * *
138941 TCAGTTTATAAAAACTTACCTGAAATAAAATAATACTATTTTATTAATTTTTTGAAAATTAATAA
381 TCAGTTCATAAAAA-TTACCTGAAATAAAATAATACTATTTTATTAATATTTTAAAAATTAATAA
* * *
139006 GCAAGATTTTTAAAAACTAAAATTGTTTTCCAAATTAGTTCAAATAATTATGGCTATTTGAATAA
445 G-AAGA-TTTTAAAAACT-AAATTGTTTACCAAATCAGTTCAAATAATTATGGCTATTTGAACAA
* *
139071 CTATCAATCTCAAATTGTTTTAAT
507 CTATCTATATCAAATTGTTTT-AT
* * * * *
139095 CTTTGTTTTCTCATTAAATAATTATTTCTGATCATACAAGCTTATTT-AGATAAAAATATTACTA
1 CTTTGTTTTGTCATAAAACAATTATTTCTGATCATACAAGCTTATTTGAAAT-AAAATAATACTA
* * * *
139159 ATTTAATAATATTCCAAAAATTAATAAGAGATTCAAAAAATAAATGTGTTTATCAAACCAGTTCA
65 ATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTGTTTATCGAACCAGTTCA
* * * * * ***
139224 AATAATTAAGACTATTAGAATAATTATCAATTTCAAATCATTCTAACCTTTTCTTTAGTCGTGTA
130 AATAATTAAGACTATTAGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTC-CAAA
* ** * * **
139289 ATAATTGCTTCAGTTCATACAAGCTTATTTGGAATAAAATAATATTAACTTATTAACATTAAAAA
194 ACAATTATTTCAATTCATACAAGCTTATTTGGAATAAAATAATATTAATTTATTAACATT-TGAA
* * * *
139354 AATTAATAATCATGAGATTTAAAAAAATAAATTTGTTTATCGAACAAGTTCGAATA-ATTATGGC
258 AATTAATAA-CATGAGATTTAAAAAAATAAATCTGTTTATCGAATAAGTTCAAATAGATT-T-GT
* * * *
139418 TATTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTGTCATAAAACAATTGTTTTA
320 TATTTGAACAATTATCTATTT-AAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCA
* * * *
139483 GTTCATAAAAGTTTATCC-GAAATAAAATAATACTACTTTAGTAATATTTCAAAAATTAATAAGT
384 GTTCATAAAA-ATTA-CCTGAAATAAAATAATACTATTTTATTAATATTTTAAAAATTAATAAG-
* * * * * * *
139547 AACTAATTTTAAAAAATAAATCAGTTTACCCAATCAGTTCAAATAATTATAGCCATTTAAACAAC
446 AA--GATTTTAAAAACTAAAT-TGTTTACCAAATCAGTTCAAATAATTATGGCTATTTGAACAAC
* *
139612 TATCTATTTCAAATTGTTATTAC
508 TATCTATATCAAATTGTT-TTAT
* * * * * *
139635 CTTTTGTTTTGTCATAAAATAATTGTTTTTCAACATACAAGCTTATTTGAAATAAAATAATACCA
1 C-TTTGTTTTGTCATAAAACAATTATTTCTGATCATACAAGCTTATTTGAAATAAAATAATACTA
* * * * * * *
139700 ATTTATTAATATTTTAAGAATTAATAAGACATTTAAAAAATAAATCAGTTTATTGAACTAGTTCA
65 ATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTGTTTATCGAACCAGTTCA
* * * * *
139765 AATAGTTATGACTATTTGCACAATTTTCTATTTCAAAT
130 AATAATTAAGACTATTAGAACAATTATCTATTTCAAAT
139803 TGTTACAACC
Statistics
Matches: 1471, Mismatches: 238, Indels: 150
0.79 0.13 0.08
Matches are distributed among these distances:
533 3 0.00
534 9 0.01
535 153 0.10
536 137 0.09
537 262 0.18
538 72 0.05
539 329 0.22
540 83 0.06
541 311 0.21
542 93 0.06
543 19 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (529 bp):
CTTTGTTTTGTCATAAAACAATTATTTCTGATCATACAAGCTTATTTGAAATAAAATAATACTAA
TTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTGTTTATCGAACCAGTTCAA
ATAATTAAGACTATTAGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCCAAAAC
AATTATTTCAATTCATACAAGCTTATTTGGAATAAAATAATATTAATTTATTAACATTTGAAAAT
TAATAACATGAGATTTAAAAAAATAAATCTGTTTATCGAATAAGTTCAAATAGATTTGTTATTTG
AACAATTATCTATTTAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTCATA
AAAATTACCTGAAATAAAATAATACTATTTTATTAATATTTTAAAAATTAATAAGAAGATTTTAA
AAACTAAATTGTTTACCAAATCAGTTCAAATAATTATGGCTATTTGAACAACTATCTATATCAAA
TTGTTTTAT
Found at i:139874 original size:17 final size:16
Alignment explanation
Indices: 139852--139900 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 16
139842 AATTTAATTG
139852 TTAATTATATATATAAA
1 TTAATTATA-ATATAAA
139869 TTAATTATAATAT-AA
1 TTAATTATAATATAAA
*
139884 TT-ATAATAATA-AAA
1 TTAATTATAATATAAA
139898 TTA
1 TTA
139901 TAAAATAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 4 0.14
17 9 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAATTATAATATAAA
Found at i:139894 original size:14 final size:14
Alignment explanation
Indices: 139853--139916 Score: 55
Period size: 14 Copynumber: 4.7 Consensus size: 14
139843 ATTTAATTGT
139853 TAATTAT-AT-ATA
1 TAATTATAATAATA
*
139865 TAAATTAATTATAATA
1 T-AATT-ATAATAATA
139881 TAATTATAATAATA
1 TAATTATAATAATA
*
139895 AAATTATAA-AATA
1 TAATTATAATAATA
*
139908 GAA-TATAAT
1 TAATTATAAT
139917 TTTAAATGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
12 6 0.14
13 10 0.23
14 18 0.41
15 6 0.14
16 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
TAATTATAATAATA
Found at i:140240 original size:17 final size:18
Alignment explanation
Indices: 140220--140269 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
140210 TTCAAATCTC
* *
140220 ATAACTATTTAATA-ATT
1 ATAAATATTAAATATATT
140237 ATAAATATTAAATATATT
1 ATAAATATTAAATATATT
140255 AATATAAT-TTAAATA
1 -ATA-AATATTAAATA
140270 GCATTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.43
18 3 0.11
19 10 0.36
20 3 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAATATTAAATATATT
Found at i:140268 original size:19 final size:18
Alignment explanation
Indices: 140243--140286 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
140233 AATTATAAAT
*
140243 ATTAAATA-TATTAATATA
1 ATTAAATAGCATT-ATATA
140261 ATTTAAATAGCATTATATA
1 A-TTAAATAGCATTATATA
140280 ATTAAAT
1 ATTAAAT
140287 TAATACCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATAGCATTATATA
Found at i:140843 original size:9 final size:9
Alignment explanation
Indices: 140801--140914 Score: 70
Period size: 8 Copynumber: 13.4 Consensus size: 9
140791 ATTAGTATGT
140801 ATTATA-TA
1 ATTATATTA
*
140809 ATTA-ACTA
1 ATTATATTA
*
140817 A-TATATAA
1 ATTATATTA
140825 ATTATAATTA
1 ATTAT-ATTA
*
140835 AGTATATT-
1 ATTATATTA
140843 ATTA-ATTA
1 ATTATATTA
140851 ATTATATTA
1 ATTATATTA
140860 A-TATA-TA
1 ATTATATTA
* *
140867 TTTAAATTA
1 ATTATATTA
140876 ATTATAATTA
1 ATTAT-ATTA
140886 ATTA-ATATA
1 ATTATAT-TA
140895 A-TA-ATTA
1 ATTATATTA
140902 A-TATAATTA
1 ATTAT-ATTA
140911 ATTA
1 ATTA
140915 AATGGTTTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 24
0.72 0.08 0.21
Matches are distributed among these distances:
7 13 0.15
8 30 0.36
9 24 0.29
10 17 0.20
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (9 bp):
ATTATATTA
Found at i:140849 original size:22 final size:22
Alignment explanation
Indices: 140805--140886 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 22
140795 GTATGTATTA
* *
140805 TATAATTAACTA-ATATATAAAT
1 TATAATTAAATATAT-TATTAAT
*
140827 TATAATTAAGTATATTATTAAT
1 TATAATTAAATATATTATTAAT
140849 TAATTATATTAATATATATTTAAATTAAT
1 T-A-TA-ATTAA-ATATA-TT--ATTAAT
140878 TATAATTAA
1 TATAATTAA
140887 TTAATATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
22 18 0.37
23 3 0.06
24 2 0.04
25 5 0.10
26 9 0.18
27 4 0.08
28 1 0.02
29 7 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
TATAATTAAATATATTATTAAT
Found at i:140852 original size:4 final size:4
Alignment explanation
Indices: 140829--140915 Score: 65
Period size: 4 Copynumber: 20.8 Consensus size: 4
140819 ATATAAATTA
*
140829 TAAT TAAG TATAT T-AT TAAT TAAT TATAT TAAT ATATATT TAAAT TAAT
1 TAAT TAAT TA-AT TAAT TAAT TAAT TA-AT TAAT -TA-A-T T-AAT TAAT
140878 T-A- TAAT TAAT TAAT ATAA- TAAT TAAT ATAAT TAAT TAA
1 TAAT TAAT TAAT TAAT -TAAT TAAT TAAT -TAAT TAAT TAA
140916 ATGGTTTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 24
0.73 0.02 0.25
Matches are distributed among these distances:
2 1 0.01
3 8 0.12
4 38 0.55
5 17 0.25
6 3 0.04
7 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:140900 original size:16 final size:14
Alignment explanation
Indices: 140824--140915 Score: 85
Period size: 12 Copynumber: 7.1 Consensus size: 14
140814 CTAATATATA
*
140824 AATTATAATTAAGT
1 AATTATAATTAATT
*
140838 -A-TATTATTAATT
1 AATTATAATTAATT
140850 AATTAT-ATTAA-T
1 AATTATAATTAATT
*
140862 -A-TATATTTAAATT
1 AATTATAATT-AATT
140875 AATTATAATTAATT
1 AATTATAATTAATT
140889 AA-TATAA-TAATT
1 AATTATAATTAATT
140901 AA-TATAATTAATT
1 AATTATAATTAATT
140914 AA
1 AA
140916 ATGGTTTTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
10 3 0.05
11 3 0.05
12 24 0.36
13 20 0.30
14 10 0.15
15 6 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (14 bp):
AATTATAATTAATT
Found at i:140909 original size:31 final size:31
Alignment explanation
Indices: 140849--140910 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
140839 TATTATTAAT
*
140849 TAATTATATTAATATATATTTAAATTAATTA
1 TAATTATATTAATATATAATTAAATTAATTA
140880 TAATTA-ATTAATATAATAATT-AATATAATTA
1 TAATTATATTAATAT-ATAATTAAAT-TAATTA
140911 ATTAAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TAATTATATTAATATATAATTAAATTAATTA
Found at i:140910 original size:35 final size:38
Alignment explanation
Indices: 140827--140914 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 38
140817 ATATATAAAT
* *
140827 TATAATTAAGTATATTATTAATTAATTATATTAATATATA
1 TATAATTAA-T-TATAATTAATTAATTATAATAATATATA
*
140867 TTTAAATTAATTATAATTAATTAA-TATAATAAT-TA-A
1 TAT-AATTAATTATAATTAATTAATTATAATAATATATA
140903 TATAATTAATTA
1 TATAATTAATTA
140915 AATGGTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
35 9 0.21
36 3 0.07
37 2 0.05
38 8 0.19
39 12 0.28
40 3 0.07
41 6 0.14
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
TATAATTAATTATAATTAATTAATTATAATAATATATA
Found at i:141080 original size:19 final size:19
Alignment explanation
Indices: 141030--141080 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
141020 ATAATTAAAC
141030 ATATAT-TAAATATTATTA
1 ATATATATAAATATTATTA
* *
141048 AT-TAAATAACATATTATTT
1 ATATATATAA-ATATTATTA
141067 ATATATATAAATAT
1 ATATATATAAATAT
141081 ATAATTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.07
18 5 0.19
19 14 0.52
20 6 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATATATAAATATTATTA
Found at i:141653 original size:17 final size:18
Alignment explanation
Indices: 141633--141670 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
141623 TTTATATGTT
141633 ATATTAAATTAATA-TTA
1 ATATTAAATTAATATTTA
*
141650 ATATTAATTTAATATTTA
1 ATATTAAATTAATATTTA
141668 ATA
1 ATA
141671 ATTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTAAATTAATATTTA
Found at i:141676 original size:22 final size:22
Alignment explanation
Indices: 141651--141695 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
141641 TTAATATTAA
* *
141651 TATTAATTTAATATTTAATAAT
1 TATTAAATTAATAATTAATAAT
*
141673 TATTAAATTATTAATTAATAAT
1 TATTAAATTAATAATTAATAAT
141695 T
1 T
141696 TATAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTAAATTAATAATTAATAAT
Found at i:141678 original size:17 final size:16
Alignment explanation
Indices: 141633--141682 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
141623 TTTATATGTT
141633 ATATTAAATTAATATTA
1 ATATT-AATTAATATTA
141650 ATATTAATTTAATATTTA
1 ATATTAA-TTAATA-TTA
141668 ATAATT-ATTAA-ATTA
1 AT-ATTAATTAATATTA
141683 TTAATTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 15 0.50
18 6 0.20
19 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTAATTAATATTA
Found at i:141698 original size:15 final size:15
Alignment explanation
Indices: 141651--141698 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
141641 TTAATATTAA
141651 TATTAATTTAAT-ATT
1 TATTAA-TTAATAATT
* * *
141666 TAATAATTATTAAAT
1 TATTAATTAATAATT
141681 TATTAATTAATAATT
1 TATTAATTAATAATT
141696 TAT
1 TAT
141699 AAATATTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTAATTAATAATT
Found at i:141701 original size:22 final size:20
Alignment explanation
Indices: 141665--141726 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
141655 AATTTAATAT
141665 TTAATAA-TTATTAAATTATTAA
1 TTAATAATTTA-TAAA-TATT-A
141687 TTAATAATTTATAAATATTA
1 TTAATAATTTATAAATATTA
141707 TT-ATAAATTTATATAATATT
1 TTAAT-AATTTATA-AATATT
141727 TATAAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.05
20 11 0.30
21 10 0.27
22 11 0.30
23 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATAATTTATAAATATTA
Found at i:141729 original size:19 final size:20
Alignment explanation
Indices: 141692--141736 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
141682 ATTAATTAAT
141692 AATTTATAAATATTATTATA
1 AATTTATAAATATTATTATA
141712 AATTTATATAATA-T-TTATA
1 AATTTATA-AATATTATTATA
141731 AATTTA
1 AATTTA
141737 ATTGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.46
20 9 0.38
21 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTATAAATATTATTATA
Found at i:142516 original size:6 final size:6
Alignment explanation
Indices: 142498--142537 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
142488 ATTTGTAAGT
* *
142498 ATTA-A ATTATA ATTGTA ATTGTA ATTATA ATTATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTAT
142538 TTTGATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:143522 original size:163 final size:163
Alignment explanation
Indices: 143367--143676 Score: 406
Period size: 163 Copynumber: 1.9 Consensus size: 163
143357 ACTTGTTTGG
* * * * * *
143367 TAAACAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTAATAAATTAGTATTGT
1 TAAACAAATTTATTTTTTAAATCTCTAACTTATTAATTTTTGAAATAATAATAAAGTACTATTAT
* * * *
143432 TTTATTTTGAATAAGCTTGTA-CGATCAAAAACAATTGTTTTGTAATAAAACAAAAGGTCATAAC
66 TTTATTTTGAATAAG-TTGTATCGAACAAAAACAATTGTTTTATAACAAAACAAAAGATCATAAC
143496 GATTTGAAATAAATAATTATTTAAACTAATTCAA
130 GATTTGAAATAAATAATTATTTAAACTAATTCAA
*** *
143530 TAAATTGATTTATTTTTTAAATCTCTAACTTCTTAATTTTTGAAATAATAATAAAGTACTATTAT
1 TAAACAAATTTATTTTTTAAATCTCTAACTTATTAATTTTTGAAATAATAATAAAGTACTATTAT
* * * * * *
143595 TTTATTTTGTATAAGTTTTATTGAACTAAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
66 TTTATTTTGAATAAGTTGTATCGAACAAAAACAATTGTTTTATAACAAAACAAAAGATCATAACG
* *
143660 ATTTTAAATAGATAATT
131 ATTTGAAATAAATAATT
143677 GTTCAAATAG
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
162 4 0.03
163 120 0.97
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (163 bp):
TAAACAAATTTATTTTTTAAATCTCTAACTTATTAATTTTTGAAATAATAATAAAGTACTATTAT
TTTATTTTGAATAAGTTGTATCGAACAAAAACAATTGTTTTATAACAAAACAAAAGATCATAACG
ATTTGAAATAAATAATTATTTAAACTAATTCAA
Done.